clusters function

Cluster bar plot

This function plots clusters over a set of trajectories as joint, coloured bar plots. The clusters are sorted beginning with the most populated one in descending order.

clusters( clusters,
          clustersNumber = NA,
          legendTitle = "trajectories",
          barePlot = FALSE,
          ... )

Arguments

• clusters: Matrix with clusters: trajectories are given in row-wise, clusters in column-wise fashion as provided by load_clusters(), the associated loading function.
• clustersNumber: When specified, only these first clusters are shown.
• legendTitle: The title of the legend.
• barePlot: Boolean, indicating whether the plot is to be made without any additional information.
• ...: Additional arguments (ellipsis).

Returns

Returns a nxm-matrix with n being the number of input trajectories and m the number of different clusters. Each element in the matrix holds the number of snapshots, the respective cluster occurred in the respective trajectory.

Examples

# GROMOS (see load_clusters() for other input possibilities)
clusters( load_clusters( system.file( "extdata/clusters_example.txt.gz",
                                      package = "MDplot" ) ) )

Author(s)

Christian Margreitter